SRA - SRR*.lite.sra

adrian · 05-19-2011, 08:36 AM

Dear group,

I have a question about .lite.sra files.

For instance in a study there are 4 experiments (4 different SRX entries).

In each SRX entry, there are different number of SRR.lite.sra files.

for example SRX0001 there are 3 different SRR1.lite.SRA to SRR3.lite.SRA

Are these 3 different runs (meaning 3 different fastq files) or you combine 3 lite.SRA files into one fastq file.

What should be done. Please help.
thanks
Adrian

HMorrison · 03-14-2012, 06:00 AM

Can you provide the actual accession number? Answer may be different depending on whether the data are from a multiplexed run or not.

cliffbeall · 03-19-2012, 10:43 AM

In a data set I recently looked at, each SRR-lite file was from a different subject, and the SRX files appeared to be (454) instrument runs. So there were 5 SRXs and about 300 SRRs. I am not sure if that is a general phenomenon, but you hopefully can tell what is what by using the run browser.

It depends on what you want to do with the data. I didn't care about the individual subjects or runs and just wanted everything together.

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05-19-2011, 08:36 AM	#1
adrian Member Location: baltimore Join Date: Oct 2009 Posts: 89	*SRA - SRR.lite.sra** Dear group, I have a question about .lite.sra files. For instance in a study there are 4 experiments (4 different SRX entries). In each SRX entry, there are different number of SRR.lite.sra files. for example SRX0001 there are 3 different SRR1.lite.SRA to SRR3.lite.SRA Are these 3 different runs (meaning 3 different fastq files) or you combine 3 lite.SRA files into one fastq file. What should be done. Please help. thanks Adrian

03-14-2012, 06:00 AM	#2
HMorrison Senior Member Location: Massachusetts Join Date: May 2009 Posts: 116	Can you provide the actual accession number? Answer may be different depending on whether the data are from a multiplexed run or not.

03-19-2012, 10:43 AM	#3
cliffbeall Senior Member Location: Ohio Join Date: Jan 2010 Posts: 144	In a data set I recently looked at, each SRR-lite file was from a different subject, and the SRX files appeared to be (454) instrument runs. So there were 5 SRXs and about 300 SRRs. I am not sure if that is a general phenomenon, but you hopefully can tell what is what by using the run browser. It depends on what you want to do with the data. I didn't care about the individual subjects or runs and just wanted everything together.